Multiplexed, rapid detection of H5N1 using a PCR-free nanoparticle-based genomic microarray assay

Zhao, Jiangqin; Tang, Shixing; Storhoff, James; Marla, Sudhakar; Bao, Y Paul; Wang, Xue; Wong, Eric Y; Ragupathy, Viswanath; Ye, Zhiping; Hewlett, Indira K

doi:10.1186/1472-6750-10-74

BMC Biotechnology

Table 1 Capture, intermediate and PCR oligos sequences

From: Multiplexed, rapid detection of H5N1 using a PCR-free nanoparticle-based genomic microarray assay

Oligo's Name	Target gene	design purpose	sequences (5' to 3')
M01**	M	capture	CAGGTAGATRTTGAAAGATGAGYCTTCTAACCGAGGTCGA
M02**	M	capture	TGACTCCCAGCAYMRGTCTCATAGGCAAATGGTGACAACA
M03**	M	capture	AAGGCTATGGAGCARATGGCDGGATCRAGTGAGCARGCAG
H501	H5	capture	TCATCAATGTGCCGGAATGGTCTTACATAGTGGAGAAGGC
H502	H5	capture	CATACCCAACAATAAAGAGGAGCTACAATAATACCAACCA
H503	H5	capture	TAGAGGGAGGATGGCAGGGAATGGTAGATGGTTGGTATGG
H504	H5	capture	TTCCTAGATGTCTGGACTTATAATGCTGAACTTCTGGTTC
N101**	N1	capture	CAGYAAGGACAACAGTATAAGGATCGGTTCCARGGGGGAT
N102	N1	capture	CATTAATGAGTTGTCCTGTGGGTGAGGCTCCCTCCCCATA
N103**	N1	capture	CCTAATTATCACTATGAGGARTGCTCCTGTTATCCTGATG
N104**	N1	capture	TGCATAAGACCTTGTTTCTGGGTTGAGTTRATCAGAGGGC
PCtrl1		capture	ACTGTTTGTTATCTTGTTATCGTTATCTGA
Ipm01	M	intermediate	AAAGCCGAGATCGCACAGAGACTTGAAGATGTCTTTGCAG*
Ipm02	M	intermediate	AGCTCCAGTGCTGGTCTGAAAAATGATCTTCTTGAAAATT*
Ipm03	M	intermediate	GCCAAAGTCTATGAGGGAAGAATATCGAAAGGAACAGCAG*
Ipm04	M	intermediate	AATGGGGGTGCAGATGCAACGGTTCAAGTGATCCTCTCAC*
Ipm05	M	intermediate	CCACTAATCAGACATGAGAACAGAATGGTTTTAGCCAGCA*
Ipm06	H5	intermediate	GACTATGAAGAATTGAAACACCTATTGAGCAGAATAAACC*
Ipm07	H5	intermediate	TCCGTTGGGACATCAACACTAAACCAGAGATTGGTACCAA*
Ipm08	H5	intermediate	AGGCAATAGATGGAGTCACCAATAAGGTCAACTCGATCAT*
Ipm09	H5	intermediate	CATGACTCAAATGTCAAGAACCTTTACGACAAGGTCCGAC*
Ipm10	H5	intermediate	ACTGGCAATCATGGTAGCTGGTCTATCCTTATGGATGTGC*
Ipn11	N1	intermediate	AGAGAGCCGTTCATCTCATGCTCCCACTTGGAATGCAGAA*
Ipn12	N1	intermediate	GAGTCTGTTGCTTGGTCRGCAAGTGCTTGCCATGATGGCA*
Ipn13	N1	intermediate	TGTGCATGTGTAAATGGCTCTTGCTTTACTGTAATGACTG*
Ipn14	N1	intermediate	AATCACATGTGTGTGCAGGGATAATTGGCATGGCTCAAAT*
Ipn15	N1	intermediate	TCTTGGCCAGACGGTGCTGAGTTGCCATTCACCATTGACA*
^aPCrl2		control probe	TCAGATAACGATAACAAGATAACAAACAGT
^bSZAM-	M	PCR	AGTAGAAACAAGGTAGTTTTTT
MF	M	PCR	TAGATATTGAAAGATGAGTC
HA5F	H5	PCR	GGTATAATCTGTCAAAATGGAGA
HA5R	H5	PCR	TAACTACAATCTGAACTCACAAAT
NA6F	N1	PCR	TCCAAATCAGAAGATAATAACCAT
NA6R	N1	PCR	GAATGGCAACTCAGCACCGTCT

* 25-mer poly (A) tail added at 3' end of each intermediate oligonucleotides
** M gene degenerated capture oligos from H1N1, H3N2 and H5N1.
^a Gold NP was functionalized by PCrl2 oligo as a internal control probe.
^bSequence from publication by Zou (1997) [36].

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ISSN: 1472-6750

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